PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

KN538746.1_FGP047

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

C2H2

Protein Properties

Length: 163aa MW: 18914.8 Da PI: 9.735

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KN538746.1_FGP047	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	19.5	2.7e-06	30	52	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C+ C+k F r nL+ H r H KN538746.1_FGP047 30 FVCEVCNKGFQREQNLQLHRRGH 52 89*******************88 PP
2	zf-C2H2	13.8	0.00017	107	129	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 +kC +C+k++ +s+ k H + + KN538746.1_FGP047 107 WKCDKCSKRYAVQSDWKAHSKIC 129 58*****************9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.30.160.60	1.5E-6	29	52	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.81E-8	29	52	No hit	No description
SMART	SM00355	0.0041	30	52	IPR015880	Zinc finger, C2H2-like
Pfam	PF12171	7.2E-6	30	52	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	11.094	30	52	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	32	52	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.9E-5	95	128	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	2.81E-8	102	127	No hit	No description
SMART	SM00355	140	107	127	IPR015880	Zinc finger, C2H2-like

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 163 aa Download sequence Send to blast
MNSIVLSSGE DPDAEVIALS PKTLLATNRF VCEVCNKGFQ REQNLQLHRR GHNLPWKLKQ 60 KNPLQAQRRR VYLCPEPTCV HHDPSRALGD LTGIKKHFCR KHGEKKWKCD KCSKRYAVQS 120 DWKAHSKICG TREYRCDCGT LFSRYYTHTL PISLYYVLYA FAA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	7e-22	103	148	3	51	Zinc finger protein JACKDAW
5b3h_F	7e-22	103	148	3	51	Zinc finger protein JACKDAW
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269\|PubMed:24821766, ECO:0000305\|PubMed:19726569}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KN538746.1_FGP047

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by gibberellin. {ECO:0000305\|PubMed:17933900}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP004188	0.0	AP004188.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1493_H11.
GenBank	AP014958	0.0	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002446943.1	1e-100	protein indeterminate-domain 5, chloroplastic
Refseq	XP_004976512.1	1e-99	protein indeterminate-domain 5, chloroplastic
Refseq	XP_021318855.1	1e-100	protein indeterminate-domain 5, chloroplastic
Refseq	XP_025824078.1	1e-100	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824079.1	1e-100	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824080.1	1e-100	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824082.1	1e-100	protein indeterminate-domain 5, chloroplastic-like
Refseq	XP_025824083.1	1e-100	protein indeterminate-domain 5, chloroplastic-like
Swissprot	Q8GYC1	9e-89	IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBL	A0A1D6E319	2e-99	A0A1D6E319_MAIZE; Naked endosperm1
STRING	OPUNC02G25110.1	1e-99	(Oryza punctata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP202	38	320

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G02080.1	4e-91	indeterminate(ID)-domain 4

Publications ? help Back to Top
Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755]